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OF CONTENTS Internal Parameters: A-C D-M P-Z
Set Display
Syntax: set display selected
set display normal
This command controls the display mode within RasMol. By
default, set display normal, RasMol displays the molecule in the
representation specified by the user. The command set display selected
changes the display mode such that the molecule is temporarily drawn so as to indicate the
currently selected portion of the molecule. The user specified color scheme and
representation remains unchanged. In this representation all selected atoms are shown in
yellow and all non-selected atoms are shown in blue. The color of the background is also
changed to a dark grey to indicate the change of display mode. This command is typically
only used by external Graphical User Interfaces (GUIs).
Set FontSize
Syntax: set fontsize {<value>}
The RasMol set fontsize command
is used to control the size of the characters that form atom labels. This value
corresponds to the height of the displayed character in pixels. The maximum value of fontsize
is 32 pixels; the default value is 8 pixels. To display atom labels on
the screen use the RasMol label
command and to change the color of displayed labels, use the color labels command.
Set HBonds
Syntax: set hbonds backbone
set hbonds sidechain
The RasMol hbonds parameter determines whether hydrogen bonds
are drawn between the donor and acceptor atoms of the hydrogen bond, set hbonds
sidechain; or between the alpha carbon atoms of the protein backbone and between
the phosphorus atoms of the nucleic acid backbone, set hbonds backbone.
The actual display of hydrogen bonds is controlled by the hbonds command. Drawing hydrogen bonds between protein alpha
carbons or nucleic acid phosphorus atoms is useful when the rest of the molecule is shown
in only a schematic representation such as backbone, ribbons
or strands. This parameter
is similar to the RasMol ssbonds
parameter.
Set Hetero
Syntax: set hetero <boolean>
The RasMol hetero parameter is used to
modify the 'default' behavior of the RasMol select command, i.e. the behavior of select
without any parameters. When this value is false, the default select
region does not include any heterogenous atoms (refer to the predefined set hetero ). When this value is true,
the default select region may contain hetero atoms. This parameter is
similar to the RasMol hydrogen parameter, which
determines whether hydrogen atoms should be included in the default set. If both hetero
and hydrogen are true,select
without any parameters is equivalent to select
all.
Set HourGlass
Syntax: set hourglass <boolean>
The RasMol hourglass parameter allows the
user to enable and disable the use of the 'hour glass' cursor used by RasMol to indicate
that the program is currently busy drawing the next frame. The command set
hourglass on enables the indicator, whilst set hourglass off
prevents RasMol from changing the cursor. This is useful when spinning the molecule,
running a sequence of commands from a script file or using interprocess communication (IPC) to execute complex sequences of
commands. In these cases a 'flashing' cursor may be distracting.
Set Hydrogen
Syntax: set hydrogen <boolean>
The RasMol hydrogen parameter is used to
modify the 'default' behavior of the RasMol select command, i.e. the behavior of select
without any parameters. When this value is false, the default select
region does not include any hydrogen or deuterium atoms (refer to the predefined set hydrogen ). When this value is true,
the default select region may contain hydrogen atoms. This parameter is
similar to the RasMol hetero parameter which
determines whether heterogenous atoms should be included in the default set. If both hydrogen
and hetero are true,select
without any parameters is equivalent to select
all.
Set Kinemage
Syntax: set kinemage <boolean>
The RasMol set kinemage command controls the
amount of detail stored in a Kinemage output file generated by the RasMol
write kinemage command. The
output kinemage files are intended to be displayed by David Richardson'sMAGE
program [5]. set kinemage false,
the default, only stores the currently displayed representation in the generated output
file. The command set kinemage true, generates a more complex Kinemage
that contains both the wireframe
and backbone
representations as well as the coordinate axes,
bounding box, and
crystal unit cell.
Set Menus
Syntax: set menus <boolean>
The RasMol set menus command enables the
canvas window's menu buttons or menu bar. This command is typically only used by graphical
user interfaces or to create as large an image as possible when using Microsoft Windows.
Set Monitor
Syntax: set monitor on
set monitor off
The distance monitor labels
may be turned off with the command set monitors off, and re-enabled with
the command set monitors on.
Set Mouse
Syntax: set mouse rasmol
set mouse insight
set mouse quanta
The RasMol set mouse command sets the
rotation, translation, scaling and zooming mouse bindings. The default value is rasmol
which is suitable for two-button mice (for three-button mice
the second and third buttons are synonymous); X-Y
rotation is controlled by the first button, and X-Y
translation by the second. Additional functions are controlled
by holding a modifier key on the keyboard. [Shift] and the first
button performs scaling, [shift] and the second
button performs Z-rotation, and [control] and
the first mouse button controls the clipping plane. The insight
and quanta provide the same mouse bindings as other packages for
experienced users.
See Mouse Controls in the General
Operation section for a table of mouse click-and-drag controls.
Back to TABLE OF CONTENTS Internal Parameters: A-C D-M P-Z